Zobrazeno 1 - 10
of 15
pro vyhledávání: '"Seren Soner"'
Publikováno v:
PLoS Computational Biology, Vol 11, Iss 10, p e1004461 (2015)
Protein-protein interfaces have been evolutionarily-designed to enable transduction between the interacting proteins. Thus, we hypothesize that analysis of the dynamics of the complex can reveal details about the nature of the interaction, and in par
Externí odkaz:
https://doaj.org/article/3ff12170bc824125bfce94fcbdcfa0d3
Publikováno v:
PLoS ONE, Vol 8, Iss 9, p e74320 (2013)
It is of significant interest to understand how proteins interact, which holds the key phenomenon in biological functions. Using dynamic fluctuations in high frequency modes, we show that the Gaussian Network Model (GNM) predicts hot spot residues wi
Externí odkaz:
https://doaj.org/article/822bad0794a94d3fb9c38dab3db23b0b
Autor:
Seren Soner, Can Özturan
Publikováno v:
Concurrency and Computation: Practice and Experience. 28:2341-2352
Summary Slurm resource management system is used on many TOP500 supercomputers. We present a new auction-based heterogeneous cluster scheduler plug-in called AUCSCHED2. AUCSCHED2 contributes two major enhancements: the first is the extension of Slurm
Externí odkaz:
https://explore.openaire.eu/search/publication?articleId=doi_________::45ffcc56430aaf9a8333e675b8af4bd9
https://doi.org/10.1002/cpe.3653
https://doi.org/10.1002/cpe.3653
Autor:
Can Özturan, Seren Soner
Publikováno v:
Journal of Computer and System Sciences. 81:38-56
We present two integer programming based heterogeneous CPU-GPU cluster schedulers, called IPSCHED and AUCSCHED, for the widely used SLURM resource manager. Our scheduler algorithms take windows of jobs and solve allocation problems in which free CPU
Externí odkaz:
https://explore.openaire.eu/search/publication?articleId=doi_________::5cc4dcc27ca1ed82f04511c3b5931e38
https://doi.org/10.1016/j.jcss.2014.06.011
https://doi.org/10.1016/j.jcss.2014.06.011
Autor:
Seren Soner, Can Özturan
Publikováno v:
Scientific Programming, Vol 2015 (2015)
We present a parallel mesh generator called PMSH that is developed as a wrapper code around the open source sequential Netgen mesh generator. Parallelization of the mesh generator is carried out in five stages: (i) generation of a coarse volume mesh;
Externí odkaz:
https://explore.openaire.eu/search/publication?articleId=doi_dedup___::2a47c6d974a7b0fb6b5ec5dc60db3eb0
https://doi.org/10.1155/2015/437480
https://doi.org/10.1155/2015/437480
Autor:
Seren Soner
SLURM is a popular resource management system that is used on many supercomputers in the TOP500 list. In this work, we describe our new AUCSCHED3 SLURM scheduler plug-in that extends our earlier AUCSCHED2 plug-in with a capability to do topologically
Externí odkaz:
https://explore.openaire.eu/search/publication?articleId=doi_dedup___::205a32e98b9bad286402546043a4c100
Publikováno v:
PLoS ONE
PLoS ONE, Vol 8, Iss 9, p e74320 (2013)
PLoS ONE, Vol 8, Iss 9, p e74320 (2013)
It is of significant interest to understand how proteins interact, which holds the key phenomenon in biological functions. Using dynamic fluctuations in high frequency modes, we show that the Gaussian Network Model (GNM) predicts hot spot residues wi
Externí odkaz:
https://explore.openaire.eu/search/publication?articleId=doi_dedup___::556b9fea989c9c5ba5dbb0173f7bea36
https://pubmed.ncbi.nlm.nih.gov/24023934
https://pubmed.ncbi.nlm.nih.gov/24023934
Autor:
Can Özturan, Seren Soner
Publikováno v:
HPCC-ICESS
We present an integer programming based heterogeneous CPU-GPU cluster scheduler for the widely used SLURM resource manager. Our scheduler algorithm takes windows of jobs and solves an allocation problem in which free CPU cores and GPU cards are alloc
Externí odkaz:
https://explore.openaire.eu/search/publication?articleId=doi_dedup___::005c214f2ad7dae7e4b433cfd136b6e1
https://doi.org/10.1109/hpcc.2012.63
https://doi.org/10.1109/hpcc.2012.63
Publikováno v:
SC Companion
State-of-the-art supercomputers are made up of multiple types of resources. User jobs also have wide spectrum of resource requirements. Hence, a supercomputer can be thought of as a collection of heterogeneous resources with heterogeneous usage requi
Externí odkaz:
https://explore.openaire.eu/search/publication?articleId=doi_________::74aefe9be0f0e597e5228e5fde241a90
https://doi.org/10.1145/2148600.2148614
https://doi.org/10.1145/2148600.2148614
Autor:
Libin Cao, Anne Poupon, Brian G. Pierce, Howook Hwang, Ying Chen, Victor L. Hsu, Hasup Lee, Yangyu Huang, Daisuke Kihara, Juan Fernández-Recio, Vladimir Potapov, Aroop Sircar, Chaok Seok, Timothy A. Whitehead, Jérôme Azé, Nir Ben Tal, Seren Soner, Brian Kuhlman, P. Benjamin Stranges, Nobuyuki Uchikoga, Sanbo Qin, Xinqi Gong, Yi Xiao, Carlos J. Camacho, Yaoqi Zhou, Gideon Schreiber, Ora Schueler-Furman, Paul A. Bates, Krishna Praneeth Kilambi, Joël Janin, Mati Cohen, Julie C. Mitchell, Panwen Wang, Cunxin Wang, Raed Khashan, Mayuko Takeda-Shitaka, Lin Li, Martin Zacharias, Alexander Tropsha, Genki Terashi, Xiaofan Li, David Baker, Jian Zhan, Julie Bernauer, Zohar Itzhaki, Mainak Guharoy, Eva-Maria Strauch, Xiaoqin Zou, Thom Vreven, Hahnbeom Park, Sheng-You Huang, Stephen Bush, Daron M. Standley, Feng Yang, Yuko Tsuchiya, Fan Jiang, Jacob E. Corn, Takashi Ishida, Chunhua Li, Junsu Ko, Robert G. Hall, Thomas Bourquard, Iain H. Moal, Weiyi Zhang, C.M. Driggers, Nir London, Jessica L. Morgan, Ron Jacak, Haruki Nakamura, Laura Pérez-Cano, Denis Fouches, Bin Liu, Yutaka Akiyama, Omar N. A. Demerdash, Yuval Inbar, Xianjin Xu, Yuedong Yang, Dachuan Guo, Masahito Ohue, Turkan Haliloglu, Jeffrey J. Gray, Juan Esquivel-Rodríguez, Alexandre M. J. J. Bonvin, Pemra Ozbek, Sarel J. Fleishman, Şefik Kerem Ovali, Charles H. Robert, Huan-Xiang Zhou, Eiji Kanamori, Yuri Matsuzaki, Carles Pons, Zhiping Weng, Kengo Kinoshita, Shoshana J. Wodak, Shiyong Liu, Panagiotis L. Kastritis
Publikováno v:
Journal of Molecular Biology
Journal of Molecular Biology, Elsevier, 2011, 414 (2), in press. ⟨10.1016/j.jmb.2011.09.031⟩
Journal of Molecular Biology, Elsevier, 2011, in press. ⟨10.1016/j.jmb.2011.09.031⟩
Journal of Molecular Biology, 2011, 414 (2), in press. ⟨10.1016/j.jmb.2011.09.031⟩
Journal of Molecular Biology, 414(2), 289. Academic Press Inc.
Journal of Molecular Biology, Elsevier, 2011, 414 (2), in press. ⟨10.1016/j.jmb.2011.09.031⟩
Journal of Molecular Biology, Elsevier, 2011, in press. ⟨10.1016/j.jmb.2011.09.031⟩
Journal of Molecular Biology, 2011, 414 (2), in press. ⟨10.1016/j.jmb.2011.09.031⟩
Journal of Molecular Biology, 414(2), 289. Academic Press Inc.
International audience; The CAPRI (Critical Assessment of Predicted Interactions) and CASP (Critical Assessment of protein Structure Prediction) experiments have demonstrated the power of community-wide tests of methodology in assessing the current s
Externí odkaz:
https://explore.openaire.eu/search/publication?articleId=doi_dedup___::abc9fe98b9e40ef44a6829a3e83984a1
https://hal.inria.fr/inria-00637848
https://hal.inria.fr/inria-00637848